DPCstruct Metaclusters

⬡ Domain Classification in Structural Space
Properties CATH SCOP

The DPCstruct pipeline applied the Density Peak Clustering (DPC) algorithm to roughly 15 million representative AlphaFold2- predicted structures from the Foldseek Cluster database (a representative set of the AlphaFold Database, AlphaFoldDB v4.0), producing 28,246 structural metaclusters without any manual annotation. Because protein structure is more conserved than sequence over evolutionary time, DPCstruct recovers remote homologs, including proteins sharing a common fold at less than 30% sequence identity, that purely sequence-based methods typically miss.

Use the toggle buttons to switch between the Properties view (intrinsic structural metrics and Pfam annotations), the CATH fold annotations, or the SCOP fold annotations. Click any MCID to open its detail page, where you can explore the sequences and launch the integrated PDBe-Mol* 3D viewer.

SCOP Fold MCID DPC Target Q.Range T.Range Q.Cov T.Cov Q.TM-Score T.TM-Score A.TM-Score lDDT pIdent
Q5SLQ1_2000259 MC33100 A0A7X8ZHU3_33100 2-91 60-150 0.99 0.61 0.95 0.58 0.58 0.91 30.7
O75398_2000363 MC33094 A0A7J8GXV4_33094 1-42 75-116 1.0 0.36 0.98 0.36 0.36 0.99 92.8
Q43758_2000535 MC32889 A0A6A1WLS5_32889 5-244 1-240 0.96 1.0 0.96 1.0 1.0 0.97 87.0
Q62747_2000614 MC3287 A0A4X1VH25_3287 1-129 10-138 1.0 0.73 1.0 0.73 0.73 1.0 98.4
Q9NZM3_2001455 MC3287 Q9Z0R6_3287 1-124 11-134 1.0 0.92 1.0 0.92 0.92 1.0 95.9
O75936_2000209 MC32869 A0A7J6B7U2_32869 2-109 12-120 0.99 0.9 0.95 0.86 0.86 0.91 51.3
Q9ZII9_2001345 MC32850 A0A7Z0VEM5_32850 3-240 2-240 0.92 1.0 0.91 0.98 0.98 0.91 62.7
P19736_2001549 MC32798 A0A835TVL2_32798 2-57 18-73 0.84 0.28 0.71 0.26 0.26 0.93 23.2
P16442_2000056 MC32775 A0A5F9CDB0_32775 2-208 13-219 1.0 0.88 0.99 0.88 0.88 0.99 76.8
Q9RP17_2000193 MC32759 F9RQP0_32759 4-155 10-162 0.98 0.93 0.88 0.83 0.83 0.79 12.1
Legend
  • Agreement between SCOP Folds and DPCstruct Metacluster Domains:
  • SCOP Fold: SCOP fold identifier.
  • MCID: DPCstruct metacluster identifier.
  • DPC Target: Target DPCstruct protein domain.
  • Q./T.Range: Amino acid coordinate ranges for query and target.
  • Q./T.Cov: Coverage metrics indicating how much of each domain was covered in the alignment.
  • A.TM-Score: Template Modeling score of the structural alignment (0-1).
  • lDDT: Local Distance Difference Test score.
  • pIdent: Percent sequence identity between query and target.